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Hi everyone, I have just rolled out the latest code in master, beta, and test. And I'm finding a problem with something that worked before. Running this query:
add_qnode(name=babesia, id=n00)
add_…
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I managed to do Task 1 in around 10 minutes (not counting finding my way around Windows command line hahah that took about another 10 minutes). It's a good task to start the workshop with!
I have a…
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Trying to install using python 3.7/3.8 gave me similar but more complex errors. So downgraded to try with python 2.7. Get this single error for scikit_learn (see below).
>pip install pyrdf2vec
DE…
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This was of course a bit more challenging but very fulfilling when you finally get it right!!
1. Prepare docker
- I did this step the other day with no issues other than using Linux containers ins…
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Consider the following query:
add_qnode(name=mRNA editing, id=n00)
add_qnode(type=protein, id=n01)
add_qedge(source_id=n00, target_id=n01, type=participates_in, id=e00)
expand(edge_id=e00)
result…
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Is there some reason we are requiring graphs to have edges? Singletons and collections of disconnected vertices are perfectly valid graphs!
Edit: Or at least we shouldn't require the edge list t…
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At some point, Google KnowledgeGraph support was added to Contextualise. Nonetheless, the Google KnowledgeGraph API provides for a poor experience. Removing the Google KnowledgeGraph support would be …
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The following JSON:
```json
{
"id": "https://monarchinitiative.org/genelist/",
"kg_source": "Test",
"type": "biolink:KnowledgeGraph",
"@context": {
"id": "@id",
"ty…
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when I run this DSL in the `node-normalization` branch:
```
add_qnode(curie=DOID:11830, type=disease, id=n00)
add_qnode(type=gene, curie=[UniProtKB:P39060, UniProtKB:O43829, UniProtKB:P20849], is_s…
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when I run this DSL in the `node-normalization` branch:
```
add_qnode(curie=DOID:11830, type=disease, id=n00)
add_qnode(type=gene, curie=[UniProtKB:P39060, UniProtKB:O43829, UniProtKB:P20849], is_s…